AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene049634


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene049634.t1 MTR_3g063310 96.429 252 9 0 1 252 1 252 0.0 506
MS.gene049634.t1 MTR_5g076170 61.597 263 89 3 2 252 1 263 5.76e-98 287
MS.gene049634.t1 MTR_1g077560 49.606 254 121 5 2 252 1 250 1.38e-69 214
MS.gene049634.t1 MTR_5g087760 35.648 216 132 4 40 252 43 254 9.44e-36 128
MS.gene049634.t1 MTR_3g078800 38.798 183 105 3 72 250 73 252 1.34e-33 122
MS.gene049634.t1 MTR_2g012550 33.824 204 120 6 55 252 70 264 9.17e-29 110
MS.gene049634.t1 MTR_2g011350 34.437 151 92 3 80 227 35 181 8.66e-24 95.5
MS.gene049634.t1 MTR_3g104460 31.343 201 125 6 61 252 57 253 4.30e-22 92.0
MS.gene049634.t1 MTR_3g078820 30.583 206 129 5 46 246 4 200 1.91e-21 89.4
MS.gene049634.t1 MTR_2g100060 30.233 172 113 4 81 247 77 246 4.68e-21 89.4
MS.gene049634.t1 MTR_3g074150 26.050 238 161 5 15 247 15 242 1.22e-19 85.5
MS.gene049634.t1 MTR_6g071410 32.278 158 93 5 62 211 2 153 1.67e-19 84.3
MS.gene049634.t1 MTR_6g070890 32.278 158 93 5 62 211 2 153 1.67e-19 84.3
MS.gene049634.t1 MTR_1g057270 32.955 176 102 5 87 250 75 246 1.99e-18 82.0
MS.gene049634.t1 MTR_6g471090 34.868 152 83 7 66 211 10 151 5.00e-18 80.1
MS.gene049634.t1 MTR_2g086790 27.320 194 128 2 70 250 20 213 8.35e-18 79.7
MS.gene049634.t1 MTR_6g070900 31.613 155 98 6 62 211 2 153 9.89e-18 79.3
MS.gene049634.t1 MTR_6g071400 31.613 155 98 6 62 211 2 153 9.89e-18 79.3
MS.gene049634.t1 MTR_1g057400 28.877 187 124 5 51 230 3 187 1.16e-17 79.3
MS.gene049634.t1 MTR_4g119428 29.952 207 119 6 59 248 41 238 6.49e-17 77.8
MS.gene049634.t1 MTR_3g078810 34.127 126 72 3 120 239 14 134 2.34e-16 74.3
MS.gene049634.t1 MTR_7g106050 28.497 193 131 4 53 244 9 195 2.50e-16 75.5
MS.gene049634.t1 MTR_8g090320 26.344 186 109 5 61 239 83 247 6.91e-16 75.5
MS.gene049634.t1 MTR_4g051880 32.544 169 103 4 92 250 44 211 5.85e-15 72.0
MS.gene049634.t1 MTR_7g106000 26.941 219 139 8 37 246 16 222 6.00e-15 72.0
MS.gene049634.t1 MTR_2g090225 38.776 147 77 5 93 233 62 201 7.20e-15 71.6
MS.gene049634.t1 MTR_7g105870 33.742 163 105 3 70 230 44 205 1.43e-12 65.5
MS.gene049634.t1 MTR_6g471080 32.895 152 86 6 66 211 7 148 2.24e-12 64.7
MS.gene049634.t1 MTR_1g057420 27.273 165 116 4 88 250 39 201 6.12e-12 63.5
MS.gene049634.t1 MTR_3g092790 31.618 136 90 3 92 226 49 182 2.77e-11 61.6
MS.gene049634.t1 MTR_8g016370 24.314 255 152 9 2 252 1 218 2.84e-11 62.0
MS.gene049634.t1 MTR_7g105970 25.989 177 124 4 59 230 32 206 3.33e-11 61.6
MS.gene049634.t1 MTR_7g106120 28.571 126 83 3 53 172 2 126 4.84e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene049634.t1 AT1G65690 57.647 255 101 3 2 252 1 252 3.33e-96 282
MS.gene049634.t1 AT5G36970 51.394 251 119 1 2 252 1 248 4.88e-85 254
MS.gene049634.t1 AT1G54540 42.629 251 132 2 2 252 1 239 1.13e-58 186
MS.gene049634.t1 AT2G27080 35.165 182 112 3 59 239 72 248 1.95e-34 124
MS.gene049634.t1 AT2G27080 35.165 182 112 3 59 239 72 248 1.95e-34 124
MS.gene049634.t1 AT2G35980 35.233 193 110 6 40 227 18 200 6.76e-24 96.3
MS.gene049634.t1 AT3G11650 29.167 216 133 6 36 237 14 223 3.29e-23 94.7
MS.gene049634.t1 AT5G06320 32.212 208 121 7 36 230 10 210 8.43e-23 93.6
MS.gene049634.t1 AT5G21130 26.396 197 143 1 56 252 86 280 3.51e-22 92.8
MS.gene049634.t1 AT2G35460 27.950 161 113 3 72 230 57 216 3.86e-17 78.6
MS.gene049634.t1 AT3G52470 27.320 194 134 5 59 250 12 200 7.40e-17 77.0
MS.gene049634.t1 AT4G09590 29.944 177 120 4 76 250 29 203 1.20e-15 73.9
MS.gene049634.t1 AT2G22180 26.389 216 136 5 40 251 94 290 1.33e-15 75.1
MS.gene049634.t1 AT5G22870 25.434 173 128 1 65 237 25 196 1.98e-15 73.2
MS.gene049634.t1 AT3G44220 28.659 164 117 0 71 234 22 185 2.19e-15 73.2
MS.gene049634.t1 AT2G35970 29.944 177 120 4 76 250 29 203 5.71e-15 72.0
MS.gene049634.t1 AT1G17620 28.870 239 145 10 2 226 1 228 1.66e-14 71.6
MS.gene049634.t1 AT3G11660 25.275 182 131 4 70 248 20 199 1.60e-13 67.8
MS.gene049634.t1 AT2G35960 26.036 169 123 2 83 250 35 202 3.77e-13 67.0
MS.gene049634.t1 AT5G53730 27.374 179 117 4 74 246 38 209 4.19e-13 67.0
MS.gene049634.t1 AT2G46300 32.292 192 121 5 44 227 37 227 8.33e-12 63.9
MS.gene049634.t1 AT5G22200 29.496 139 98 0 88 226 43 181 1.18e-11 62.8

Find 58 sgRNAs with CRISPR-Local

Find 64 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAGTCTGTCTACGGAGTATT+TGG 0.191922 3.2:-59270741 None:intergenic
TAATATACCACTTGATATTA+AGG 0.266549 3.2:+59271042 MS.gene049634:CDS
AGAAACCCAAACAAGAAAAT+TGG 0.271660 3.2:+59270833 MS.gene049634:CDS
TCCTGTGTTTGACCTGTTAA+AGG 0.281749 3.2:-59270971 None:intergenic
GTCTCTGCCGAAATTCTATC+AGG 0.301530 3.2:+59270919 MS.gene049634:CDS
AATTCACCCTGCTAATGATT+TGG 0.334946 3.2:+59270475 MS.gene049634:CDS
GTGCTTAATCTGCCTTTAAC+AGG 0.337570 3.2:+59270959 MS.gene049634:CDS
CGATGACCCTGATAGAATTT+CGG 0.348072 3.2:-59270926 None:intergenic
TTAGAGTCAAGTTTCGTGTT+AGG 0.366756 3.2:+59271107 MS.gene049634:CDS
TTGCAATTGGCATCACTGTT+GGG 0.370285 3.2:+59270687 MS.gene049634:CDS
CTGATTCTTATAATTGCAAT+TGG 0.380687 3.2:+59270674 MS.gene049634:CDS
TGCAGTTACTGTTACATTGA+AGG 0.386255 3.2:-59270810 None:intergenic
ACGGAGTATTTGGGAAGCTT+TGG 0.388916 3.2:-59270731 None:intergenic
TCGTGTTAGGTGCAGCCTTA+AGG 0.404664 3.2:+59271120 MS.gene049634:CDS
AATTATAAGAATCAGCAATA+TGG 0.406684 3.2:-59270666 None:intergenic
AGTGCTTGGTATAAAGAAAC+AGG 0.434313 3.2:+59270884 MS.gene049634:CDS
CTCACTGGAAAGTGGCGTTT+CGG 0.437034 3.2:-59270581 None:intergenic
CAGCAGCAGCTTCAAGAAGC+AGG 0.455604 3.2:+59271019 MS.gene049634:CDS
GGTGGATGAGTGTGCCTCAC+TGG 0.457753 3.2:-59270596 None:intergenic
TGTGCCTCCAAATCATTAGC+AGG 0.461770 3.2:-59270482 None:intergenic
AGTCTGTCTACGGAGTATTT+GGG 0.463571 3.2:-59270740 None:intergenic
CACCAAGGCTATCCACCTTA+AGG 0.464159 3.2:-59271135 None:intergenic
CAGATAGTAGATGTAAGTTC+AGG 0.465160 3.2:+59271179 MS.gene049634:CDS
CTGCAACGTATTAAATAAAC+CGG 0.477808 3.2:-59270999 None:intergenic
GGAAAGTGGCGTTTCGGAAG+AGG 0.477952 3.2:-59270575 None:intergenic
ATTGCAATTGGCATCACTGT+TGG 0.490412 3.2:+59270686 MS.gene049634:CDS
AGAAAAGAAGTTGCTGCTGC+AGG 0.502944 3.2:+59270624 MS.gene049634:CDS
CGAGGAAACAAAGGAGCTGT+AGG 0.505593 3.2:-59270512 None:intergenic
TCACCCTGCTAATGATTTGG+AGG 0.507498 3.2:+59270478 MS.gene049634:CDS
ATTGGAATATACTATGTAAG+TGG 0.510147 3.2:+59270851 MS.gene049634:CDS
TGTTATTCTTAGTCTGTCTA+CGG 0.511522 3.2:-59270750 None:intergenic
GGTCAAACACAGGATGCAAC+CGG 0.517636 3.2:+59270980 MS.gene049634:CDS
ATGTGAAGGACTGCGTCGAT+CGG 0.529155 3.2:-59270549 None:intergenic
AGCCTTAAGGTGGATAGCCT+TGG 0.534517 3.2:+59271133 MS.gene049634:CDS
GTAGATGTAAGTTCAGGCTC+AGG 0.540224 3.2:+59271185 MS.gene049634:CDS
AAGAAACAGGACTGTGTGAA+GGG 0.543431 3.2:+59270897 MS.gene049634:CDS
TGCAATTGGCATCACTGTTG+GGG 0.544430 3.2:+59270688 MS.gene049634:CDS
CGAAATTCTATCAGGGTCAT+CGG 0.547495 3.2:+59270927 MS.gene049634:CDS
GTGGAAGTCATGTAAGTGCT+TGG 0.552217 3.2:+59270870 MS.gene049634:CDS
TGATTAACCTTAATATCAAG+TGG 0.555615 3.2:-59271049 None:intergenic
TTAAGGTTAATCAGAATGTG+AGG 0.569840 3.2:+59271059 MS.gene049634:CDS
TTCGGAAGAGGTGGATGTGA+AGG 0.571122 3.2:-59270563 None:intergenic
TGTTAGGTGCAGCCTTAAGG+TGG 0.580802 3.2:+59271123 MS.gene049634:CDS
AAAGAAACAGGACTGTGTGA+AGG 0.583033 3.2:+59270896 MS.gene049634:CDS
GTGCCTCCAAATCATTAGCA+GGG 0.583131 3.2:-59270481 None:intergenic
CAGAATGTGAGGGTTAAGCT+TGG 0.589428 3.2:+59271070 MS.gene049634:CDS
GAAGCTTTGGCCTAAAAGCA+AGG 0.600662 3.2:-59270718 None:intergenic
AAGAATCAGCAATATGGTGA+AGG 0.607184 3.2:-59270660 None:intergenic
GAAGTGTTTCGAGGAAACAA+AGG 0.608267 3.2:-59270521 None:intergenic
AAGTGGCGTTTCGGAAGAGG+TGG 0.610030 3.2:-59270572 None:intergenic
GAGTGTGCCTCACTGGAAAG+TGG 0.615492 3.2:-59270589 None:intergenic
TAAGGTTAATCAGAATGTGA+GGG 0.620913 3.2:+59271060 MS.gene049634:CDS
AACAAAGAGACTGTTGTCGT+CGG 0.621599 3.2:-59270786 None:intergenic
GCCTTTAACAGGTCAAACAC+AGG 0.622711 3.2:+59270970 MS.gene049634:CDS
TGTTAAAGGCAGATTAAGCA+CGG 0.636197 3.2:-59270957 None:intergenic
TCTCTGCCGAAATTCTATCA+GGG 0.641999 3.2:+59270920 MS.gene049634:CDS
CGAAACGCCACTTTCCAGTG+AGG 0.695288 3.2:+59270582 MS.gene049634:CDS
TAATATCATTATCAGCACCA+AGG 0.707969 3.2:-59271150 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTATAAGAATCAGCAATA+TGG - chr3.2:59270669-59270688 None:intergenic 20.0%
!! TAATATACCACTTGATATTA+AGG + chr3.2:59271042-59271061 MS.gene049634:CDS 20.0%
!!! ATATTCCAATTTTCTTGTTT+GGG - chr3.2:59270841-59270860 None:intergenic 20.0%
!!! TATATTCCAATTTTCTTGTT+TGG - chr3.2:59270842-59270861 None:intergenic 20.0%
! ATTGGAATATACTATGTAAG+TGG + chr3.2:59270851-59270870 MS.gene049634:CDS 25.0%
! CTGATTCTTATAATTGCAAT+TGG + chr3.2:59270674-59270693 MS.gene049634:CDS 25.0%
! TGATTAACCTTAATATCAAG+TGG - chr3.2:59271052-59271071 None:intergenic 25.0%
AGAAACCCAAACAAGAAAAT+TGG + chr3.2:59270833-59270852 MS.gene049634:CDS 30.0%
CTGCAACGTATTAAATAAAC+CGG - chr3.2:59271002-59271021 None:intergenic 30.0%
TAAGGTTAATCAGAATGTGA+GGG + chr3.2:59271060-59271079 MS.gene049634:CDS 30.0%
TAATATCATTATCAGCACCA+AGG - chr3.2:59271153-59271172 None:intergenic 30.0%
TGTTATTCTTAGTCTGTCTA+CGG - chr3.2:59270753-59270772 None:intergenic 30.0%
TTAAGGTTAATCAGAATGTG+AGG + chr3.2:59271059-59271078 MS.gene049634:CDS 30.0%
AAGAATCAGCAATATGGTGA+AGG - chr3.2:59270663-59270682 None:intergenic 35.0%
AATTCACCCTGCTAATGATT+TGG + chr3.2:59270475-59270494 MS.gene049634:CDS 35.0%
AGTGCTTGGTATAAAGAAAC+AGG + chr3.2:59270884-59270903 MS.gene049634:CDS 35.0%
CAGATAGTAGATGTAAGTTC+AGG + chr3.2:59271179-59271198 MS.gene049634:CDS 35.0%
TGCAGTTACTGTTACATTGA+AGG - chr3.2:59270813-59270832 None:intergenic 35.0%
TGTTAAAGGCAGATTAAGCA+CGG - chr3.2:59270960-59270979 None:intergenic 35.0%
TTAGAGTCAAGTTTCGTGTT+AGG + chr3.2:59271107-59271126 MS.gene049634:CDS 35.0%
! CAACTTCTTTTCTTCTTTGG+TGG - chr3.2:59270617-59270636 None:intergenic 35.0%
! CAGCAACTTCTTTTCTTCTT+TGG - chr3.2:59270620-59270639 None:intergenic 35.0%
AAAGAAACAGGACTGTGTGA+AGG + chr3.2:59270896-59270915 MS.gene049634:CDS 40.0%
AACAAAGAGACTGTTGTCGT+CGG - chr3.2:59270789-59270808 None:intergenic 40.0%
AAGAAACAGGACTGTGTGAA+GGG + chr3.2:59270897-59270916 MS.gene049634:CDS 40.0%
ATTGCAATTGGCATCACTGT+TGG + chr3.2:59270686-59270705 MS.gene049634:CDS 40.0%
CGAAATTCTATCAGGGTCAT+CGG + chr3.2:59270927-59270946 MS.gene049634:CDS 40.0%
CGATGACCCTGATAGAATTT+CGG - chr3.2:59270929-59270948 None:intergenic 40.0%
GTGCTTAATCTGCCTTTAAC+AGG + chr3.2:59270959-59270978 MS.gene049634:CDS 40.0%
TCCTGTGTTTGACCTGTTAA+AGG - chr3.2:59270974-59270993 None:intergenic 40.0%
TCTCTGCCGAAATTCTATCA+GGG + chr3.2:59270920-59270939 MS.gene049634:CDS 40.0%
TTGCAATTGGCATCACTGTT+GGG + chr3.2:59270687-59270706 MS.gene049634:CDS 40.0%
! AGTCTGTCTACGGAGTATTT+GGG - chr3.2:59270743-59270762 None:intergenic 40.0%
! GAAGTGTTTCGAGGAAACAA+AGG - chr3.2:59270524-59270543 None:intergenic 40.0%
! TAGTCTGTCTACGGAGTATT+TGG - chr3.2:59270744-59270763 None:intergenic 40.0%
!!! TCGGATTTTGAAGTGTTTCG+AGG - chr3.2:59270533-59270552 None:intergenic 40.0%
AGAAAAGAAGTTGCTGCTGC+AGG + chr3.2:59270624-59270643 MS.gene049634:CDS 45.0%
CAGAATGTGAGGGTTAAGCT+TGG + chr3.2:59271070-59271089 MS.gene049634:CDS 45.0%
GCCTTTAACAGGTCAAACAC+AGG + chr3.2:59270970-59270989 MS.gene049634:CDS 45.0%
GTAGATGTAAGTTCAGGCTC+AGG + chr3.2:59271185-59271204 MS.gene049634:CDS 45.0%
GTCTCTGCCGAAATTCTATC+AGG + chr3.2:59270919-59270938 MS.gene049634:CDS 45.0%
GTGCCTCCAAATCATTAGCA+GGG - chr3.2:59270484-59270503 None:intergenic 45.0%
GTGGAAGTCATGTAAGTGCT+TGG + chr3.2:59270870-59270889 MS.gene049634:CDS 45.0%
TGCAATTGGCATCACTGTTG+GGG + chr3.2:59270688-59270707 MS.gene049634:CDS 45.0%
TGTGCCTCCAAATCATTAGC+AGG - chr3.2:59270485-59270504 None:intergenic 45.0%
! ACGGAGTATTTGGGAAGCTT+TGG - chr3.2:59270734-59270753 None:intergenic 45.0%
! GAAGCTTTGGCCTAAAAGCA+AGG - chr3.2:59270721-59270740 None:intergenic 45.0%
! TCACCCTGCTAATGATTTGG+AGG + chr3.2:59270478-59270497 MS.gene049634:CDS 45.0%
AGCCTTAAGGTGGATAGCCT+TGG + chr3.2:59271133-59271152 MS.gene049634:CDS 50.0%
CACCAAGGCTATCCACCTTA+AGG - chr3.2:59271138-59271157 None:intergenic 50.0%
CGAGGAAACAAAGGAGCTGT+AGG - chr3.2:59270515-59270534 None:intergenic 50.0%
CTCACTGGAAAGTGGCGTTT+CGG - chr3.2:59270584-59270603 None:intergenic 50.0%
GGTCAAACACAGGATGCAAC+CGG + chr3.2:59270980-59270999 MS.gene049634:CDS 50.0%
TCGTGTTAGGTGCAGCCTTA+AGG + chr3.2:59271120-59271139 MS.gene049634:CDS 50.0%
TGTTAGGTGCAGCCTTAAGG+TGG + chr3.2:59271123-59271142 MS.gene049634:CDS 50.0%
TTCGGAAGAGGTGGATGTGA+AGG - chr3.2:59270566-59270585 None:intergenic 50.0%
! ATGTGAAGGACTGCGTCGAT+CGG - chr3.2:59270552-59270571 None:intergenic 50.0%
!! GGGCACTCTACCTTGCTTTT+AGG + chr3.2:59270708-59270727 MS.gene049634:CDS 50.0%
AAGTGGCGTTTCGGAAGAGG+TGG - chr3.2:59270575-59270594 None:intergenic 55.0%
CAGCAGCAGCTTCAAGAAGC+AGG + chr3.2:59271019-59271038 MS.gene049634:CDS 55.0%
GAGTGTGCCTCACTGGAAAG+TGG - chr3.2:59270592-59270611 None:intergenic 55.0%
GGAAAGTGGCGTTTCGGAAG+AGG - chr3.2:59270578-59270597 None:intergenic 55.0%
! CGAAACGCCACTTTCCAGTG+AGG + chr3.2:59270582-59270601 MS.gene049634:CDS 55.0%
GGTGGATGAGTGTGCCTCAC+TGG - chr3.2:59270599-59270618 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 59270455 59271213 59270455 ID=MS.gene049634
chr3.2 mRNA 59270455 59271213 59270455 ID=MS.gene049634.t1;Parent=MS.gene049634
chr3.2 exon 59270455 59271213 59270455 ID=MS.gene049634.t1.exon1;Parent=MS.gene049634.t1
chr3.2 CDS 59270455 59271213 59270455 ID=cds.MS.gene049634.t1;Parent=MS.gene049634.t1
Gene Sequence

>MS.gene049634

ATGATGACAGATCATCAGAGAATTCACCCTGCTAATGATTTGGAGGCACAAAACAAACCTACAGCTCCTTTGTTTCCTCGAAACACTTCAAAATCCGATCGACGCAGTCCTTCACATCCACCTCTTCCGAAACGCCACTTTCCAGTGAGGCACACTCATCCACCAAAGAAGAAAAGAAGTTGCTGCTGCAGGTTCTTGTGTTGTACCTTCACCATATTGCTGATTCTTATAATTGCAATTGGCATCACTGTTGGGGCACTCTACCTTGCTTTTAGGCCAAAGCTTCCCAAATACTCCGTAGACAGACTAAGAATAACACAGTTCAATCTTTCCGACGACAACAGTCTCTTTGTTACCTTCAATGTAACAGTAACTGCAAGAAACCCAAACAAGAAAATTGGAATATACTATGTAAGTGGAAGTCATGTAAGTGCTTGGTATAAAGAAACAGGACTGTGTGAAGGGTCTCTGCCGAAATTCTATCAGGGTCATCGGAATACAACCGTGCTTAATCTGCCTTTAACAGGTCAAACACAGGATGCAACCGGTTTATTTAATACGTTGCAGCAGCAGCTTCAAGAAGCAGGTAATATACCACTTGATATTAAGGTTAATCAGAATGTGAGGGTTAAGCTTGGTAAGTTGAAGATCTTTAGAGTCAAGTTTCGTGTTAGGTGCAGCCTTAAGGTGGATAGCCTTGGTGCTGATAATGATATTAGCATTTCAGATAGTAGATGTAAGTTCAGGCTCAGGCTATGA

Protein sequence

>MS.gene049634.t1

MMTDHQRIHPANDLEAQNKPTAPLFPRNTSKSDRRSPSHPPLPKRHFPVRHTHPPKKKRSCCCRFLCCTFTILLILIIAIGITVGALYLAFRPKLPKYSVDRLRITQFNLSDDNSLFVTFNVTVTARNPNKKIGIYYVSGSHVSAWYKETGLCEGSLPKFYQGHRNTTVLNLPLTGQTQDATGLFNTLQQQLQEAGNIPLDIKVNQNVRVKLGKLKIFRVKFRVRCSLKVDSLGADNDISISDSRCKFRLRL